TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2589/gabT:

update plot	correlation	link to info on gene
Rv0254c/cobU	(cc=0.4721)	info on Rv0254c/cobU
Rv3502c/-	(cc=0.4448)	info on Rv3502c/-
Rv1405c/-	(cc=0.4431)	info on Rv1405c/-
Rv3564/fadE33	(cc=0.4312)	info on Rv3564/fadE33
Rv2390c/-	(cc=0.4269)	info on Rv2390c/-
Rv3570c/hsaA	(cc=0.4206)	info on Rv3570c/hsaA
Rv0485/-	(cc=0.4164)	info on Rv0485/-
Rv3542c/-	(cc=0.4163)	info on Rv3542c/-
Rv3104c/-	(cc=0.411)	info on Rv3104c/-
Rv3779/-	(cc=0.4073)	info on Rv3779/-

Correlation of Rv2589/gabT with Rv3104c/-

Normalized LFCs for Rv2589/gabT:
(description and provenance of datasets)

	Rv2589/gabT	Rv3104c/-
Fe_supp_jason_reseq	0.268	1.44
low_pH_jason_reseq	-0.323	-0.574
NO_jason_reseq	-0.244	-0.704
B6_jason_reseq	-0.461	-0.434
MHCII_jason_reseq	-0.226	0.884
Isoniazid02	0.167	0.127
Rifampicin4	0.07	0.192
Ethambutol3	-0.516	-0.592
Meropenem3	-0.581	0.458
Vancomycin16	0.024	-0.175
Rv2680_day32	-0.017	-0.354
H37Rv_KO_MarP	0.178	0.765
hypoxia_3wks	0.646	1.188
hypoxia_6wks	0.042	1.566
glycerol	0.93	0.278
cholesterol	0.512	-0.34
AJ	-0.235	-0.445
Bibs02	-0.55	-0.16
Bibs02c	-1.166	-0.42
BL6	-0.167	0.101
BL6a	-0.316	0.344
BXD01	-0.315	0.493
BXD010	-0.291	0.367
BXD011	-0.052	0.358
BXD03	-0.087	0.073
BXD04	0.767	1.237
BXD05	0.145	1.169
BXD06	-0.135	0.24
BXD07	-0.016	0.855
BXD08	-0.238	0.73
BXD09	0.473	0.447
CAST	-1.049	-0.384
CCcont	0.491	0.608
DS01	-0.915	-0.226
DS02	0.526	0.287
DS04	-0.918	-0.829
DS0c	-0.787	0.679
GP01	0.584	-0.313
GP02	0.051	-0.321
GP0c	0.372	0.359
NOD	0.503	0.905
NZO	-0.253	0.027
PWK	0.328	0.081
H37Rv_KO_CtpC	-0.238	0.723
H37Rv_KO_CtpD	0.785	1.029
H37Rv_KO_Rv1272	0.223	-0.168
H37Rv_KO_SugABC	-0.621	0.33
H37Rv_KO_MbtN	-0.085	0.11
Trans05	0.072	0.131
macrophage_unactivated	0.975	0.464
IL1	0.946	0.768
Rapamycin	0.764	1.467
Tcell	-0.525	0.652
GMCSF	0.301	0.409
IFNab	0.378	0.348
IFNg	0.703	0.35
IFNg_GMCSF1	0.408	0.606
Rv1432_day32	-0.087	0.789
Rv1565c_day32	0.022	-1.671
secA2_input	-0.405	0.611
delta_Rv3594	0.191	0.211
delta_Rv3717	-0.408	0.0
delta_Rv3811	-0.239	-0.126
delta_Rv0954	0.364	0.981
PonA1	0.749	0.233
EccD1_KO	-0.556	-0.927
EspI_KO	-0.337	0.063
PE35_KO	-0.761	-0.747
PPE68_KO	-0.877	-0.682
glycerol2	0.06	-0.46
lignocerate	0.33	-0.342
oleate	0.457	-0.323
phosphatidylcholine	0.052	-0.287
acetate	0.208	-0.642
glucAc	0.575	-0.365
Rv0950ko	0.706	0.582
Rv1096ko	0.41	0.431
Rv3684ko	0.766	0.422
delta_otsA_trehalose	-0.383	-1.37